Strain identifier
BacDive ID: 11692
Type strain:
Species: Avibacterium gallinarum
Strain Designation: P913
Strain history: CIP <- 1986, NCTC <- 1975, P.H.A. Sneath, Leicester Univ. <- K.L. Heddleston: strain P913
NCBI tax ID(s): 755 (species)
General
@ref: 7015
BacDive-ID: 11692
DSM-Number: 17481
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative, human pathogen
description: Avibacterium gallinarum P913 is a microaerophile, mesophilic, Gram-negative human pathogen that was isolated from chicken, sinus.
NCBI tax id
- NCBI tax id: 755
- Matching level: species
strain history
@ref | history |
---|---|
7015 | <- H. Christensen <- NCTC <- P. H. A. Sneath <- K.L. Heddleston, USDA |
119512 | CIP <- 1986, NCTC <- 1975, P.H.A. Sneath, Leicester Univ. <- K.L. Heddleston: strain P913 |
doi: 10.13145/bacdive11692.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pasteurellales
- family: Pasteurellaceae
- genus: Avibacterium
- species: Avibacterium gallinarum
- full scientific name: Avibacterium gallinarum (Hall et al. 1955) Blackall et al. 2005
synonyms
- @ref: 20215
- synonym: Pasteurella gallinarum
@ref: 7015
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pasteurellales
family: Pasteurellaceae
genus: Avibacterium
species: Avibacterium gallinarum
full scientific name: Avibacterium gallinarum (Hall et al. 1955) Blackall et al. 2005
strain designation: P913
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.935
colony morphology
- @ref: 7015
- incubation period: 1-2 days
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
7015 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
7015 | HAEMOPHILUS MEDIUM (DSMZ Medium 804) | yes | https://mediadive.dsmz.de/medium/804 | Name: HAEMOPHILUS MEDIUM (DSMZ Medium 804) Composition: Mueller-Hinton broth 21.0 g/l Yeast extract 5.0 g/l Distilled water |
38101 | MEDIUM 118 - for Pasteurella, Actinobacillus and Psychrobacter frigidicola | yes | Distilled water make up to (1000.000 ml);Yeast extract (1.000 g);Tryptocasein soy agar (40.000 g) | |
119512 | CIP Medium 118-b | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=118-b |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
7015 | positive | growth | 37 | mesophilic |
38101 | positive | growth | 37 | mesophilic |
45685 | positive | growth | 37 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 45685
- oxygen tolerance: microaerophile
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | + | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | + | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | - | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | + | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
68381 | arginine | - | hydrolysis | 29016 |
68381 | D-ribose | - | builds acid from | 16988 |
68381 | D-mannitol | - | builds acid from | 16899 |
68381 | sorbitol | - | builds acid from | 30911 |
68381 | lactose | - | builds acid from | 17716 |
68381 | trehalose | + | builds acid from | 27082 |
68381 | raffinose | + | builds acid from | 16634 |
68381 | sucrose | + | builds acid from | 17992 |
68381 | L-arabinose | - | builds acid from | 30849 |
68381 | D-arabitol | - | builds acid from | 18333 |
68381 | alpha-cyclodextrin | - | builds acid from | 40585 |
68381 | hippurate | - | hydrolysis | 606565 |
68381 | glycogen | - | builds acid from | 28087 |
68381 | pullulan | - | builds acid from | 27941 |
68381 | maltose | + | builds acid from | 17306 |
68381 | melibiose | - | builds acid from | 28053 |
68381 | melezitose | - | builds acid from | 6731 |
68381 | methyl beta-D-glucopyranoside | - | builds acid from | 320055 |
68381 | D-tagatose | - | builds acid from | 16443 |
68381 | urea | - | hydrolysis | 16199 |
metabolite production
- @ref: 68381
- Chebi-ID: 15688
- metabolite: acetoin
- production: no
metabolite tests
- @ref: 68381
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68381 | urease | - | 3.5.1.5 |
68381 | beta-mannosidase | - | 3.2.1.25 |
68381 | glycyl tryptophan arylamidase | - | |
68381 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68381 | pyrrolidonyl arylamidase | + | 3.4.19.3 |
68381 | beta-galactosidase | - | 3.2.1.23 |
68381 | Alanyl-Phenylalanyl-Proline arylamidase | - | |
68381 | alkaline phosphatase | + | 3.1.3.1 |
68381 | alpha-galactosidase | - | 3.2.1.22 |
68381 | beta-glucuronidase | - | 3.2.1.31 |
68381 | beta-glucosidase | - | 3.2.1.21 |
68381 | arginine dihydrolase | - | 3.5.3.6 |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7015 | - | - | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - |
API rID32STR
@ref | ADH Arg | beta GLU | beta GAR | beta GUR | alpha GAL | PAL | RIB | MAN | SOR | LAC | TRE | RAF | SAC | LARA | DARL | CDEX | VP | APPA | beta GAL | PyrA | beta NAG | GTA | HIP | GLYG | PUL | MAL | MEL | MLZ | Mbeta DG | TAG | beta MAN | URE |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
7015 | - | - | - | - | - | + | - | - | - | - | + | + | + | - | - | - | - | - | - | + | - | - | - | - | - | + | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
7015 | chicken, sinus | USA | USA | North America |
45685 | Chicken sinus | |||
119512 | Animal, Chicken, sinus | United States of America | USA | North America |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Inflammation | |
#Host | #Birds | #Chicken |
Safety information
risk assessment
@ref | pathogenicity human | pathogenicity animal | biosafety level | biosafety level comment |
---|---|---|---|---|
7015 | yes | yes | 2 | Risk group (German classification) |
119512 | 2 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Pasteurella gallinarum strain NCTC 11188 16S ribosomal RNA gene, partial sequence | AY362921 | 1363 | ena | 755 |
7015 | Avibacterium gallinarum strain NCTC 11188 16S ribosomal RNA gene, partial sequence | M75059 | 1480 | ena | 755 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Avibacterium gallinarum DSM 17481 | GCA_004362535 | scaffold | ncbi | 755 |
66792 | Avibacterium gallinarum NCTC11188 | GCA_900454485 | contig | ncbi | 755 |
66792 | Avibacterium gallinarum NCTC 11188 | GCA_002921135 | contig | ncbi | 755 |
66792 | Avibacterium gallinarum strain DSM 17481 | 755.7 | wgs | patric | 755 |
66792 | Avibacterium gallinarum strain NCTC 11188 | 755.5 | wgs | patric | 755 |
66792 | Avibacterium gallinarum strain NCTC11188 | 755.6 | wgs | patric | 755 |
66792 | Avibacterium gallinarum NCTC 11188 | 2842988149 | draft | img | 755 |
66792 | Avibacterium gallinarum NCTC 11188 | 2840382936 | draft | img | 755 |
66792 | Avibacterium gallinarum DSM 17481 | 2799112277 | draft | img | 755 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 87.978 | no |
flagellated | no | 94.574 | no |
gram-positive | no | 98.489 | no |
anaerobic | no | 97.754 | no |
aerobic | no | 93.746 | yes |
halophile | yes | 56.232 | no |
spore-forming | no | 98.811 | no |
glucose-util | no | 55.298 | no |
thermophile | no | 98.043 | yes |
glucose-ferment | yes | 58.266 | no |
External links
@ref: 7015
culture collection no.: DSM 17481, ATCC 13361, NCTC 11188, CCUG 12391, CIP 102676
straininfo link
- @ref: 80912
- straininfo: 35790
literature
topic | Pubmed-ID | title | authors | journal | year | mesh | topic2 | DOI |
---|---|---|---|---|---|---|---|---|
Phylogeny | 8561732 | Experimental reproduction of endocarditis with Pasteurella gallinarum in mature leghorn chickens. | Tjahjowati G, Orr JP, Chirino-Trejo M, Mills JH | Avian Dis | 1995 | Animals, Chickens, Endocarditis, Bacterial/microbiology/pathology/*veterinary, Pasteurella/classification/isolation & purification, Pasteurella Infections/microbiology/pathology/*veterinary, Phenotype, Poultry Diseases/*microbiology/pathology | Phenotype | |
Pathogenicity | 35852371 | Proposal of a Method for Harmonized Broth Microdilution Antimicrobial Susceptibility Testing of Avibacterium gallinarum. | Gutgemann F, Muller A, Churin Y, Jung A, Kumm F, Heuvelink A, Yue M, Kehrenberg C | J Clin Microbiol | 2022 | *Anti-Bacterial Agents/pharmacology, *Anti-Infective Agents, Humans, Microbial Sensitivity Tests, Pasteurellaceae, Reproducibility of Results | 10.1128/jcm.00419-22 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
7015 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17481) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17481 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
38101 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/14388 | ||||
45685 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 12391) | https://www.ccug.se/strain?id=12391 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
68371 | Automatically annotated from API 50CH acid | |||||
68381 | Automatically annotated from API rID32STR | |||||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
80912 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID35790.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
119512 | Curators of the CIP | Collection of Institut Pasteur (CIP 102676) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102676 |